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I've personally prep libraries and used nanopore. While there is a lot of promise to the technology, I found it to be too inconsistent. Nanopore claims they can
by daemonk 9y ago
I've personally prep libraries and used nanopore. While there is a lot of promise to the technology, I found it to be too inconsistent. Nanopore claims they can get 10gigs of data, while power users claim they get 2-5gig on average. I consider myself lucky if I get 2gigs of data.
The non-random nature of their error profile is also a problem.
- iskander 9y agoAre those experiences on recent chemistries/flow cells? My first library prep gave me ~4 gigabases on a R7.4 flow cell and that was pretty low compared with everyone else in the workshop. Also, which library prep are you using? I think the ligation kit has historically gotten better yield (not sure if that's true any more).
- aroch 9y agoThe new rapid kits (R3) have significantly worse performance than the R2 kits it seems. I'm also extremely put off by how they handle support -- that is via a forum where they do their very best to barely answer anything
- daemonk 9y agoI agree about their communication and support. It does seem like they put all their support behind the few big labs in the UK that are actively using nanopore (free R&D for them I guess). I get a sense of "if you can't get this to work, then you are just a bad scientist" vibe from them.
- daemonk 9y agoAre you working on cell lines or bacteria? Genomic dna? I find most people that tell me they get good data yield are working on samples where dna extraction is relatively straightforward and dna yield is abundant. I used the flowcell version previous to the current one and got ~2gb of data. I used the ligation kit on genomic extraction of ~10 individuals (crustacean).